Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.

ALE, Flask, Isolate	Predicted Mutations	Mean Coverage	Total Reads	Percent Mapped	Mapped Reads	Average Read Length
A21 F97 I0 R1	51	42.6	1617048	90.7%	1466662	142.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_000913	754,446	A→G	100%	L8P (CTC→CCC)	gltA ←	citrate synthase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	754,446	0	A	G	100.0%	113.1 / ‑6.7	40	L8P (CTC→CCC)	gltA	citrate synthase
Reads supporting (aligned to +/- strand): ref base A (0/0); major base G (18/20); minor base T (0/1); total (19/21)
Rejected as polymorphism: E-value score below prediction cutoff.
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

ATTCGCAGGATGCGGTTGAAGTGAAGCCTGGGTCAAAGGTGAACACACCTTTTGAACCGAGAGTACGGATATCAATAACATCTTGACCCAGCGTGCCTTTCAGCACATCCAGTTCAACAGCTGTATCCCCGTTGAGGGTGAGTTTTGCTTTTGTATCAGCCATTTAAGGTCTCCTTAGCGCCTTATTGCGTAAGACTGCCGGAACTTAAATTTGCCTTCGCACATCAACCTGGCTTTACCCGTTTTTTATTTGGCTCGCCGCTCTGTGAAAGA  >  NC_000913/754306‑754578

aTTCGCAGGATGCGGTTGAAGTGAAGCCTGGGTCAAAGGTGAACACACCTTTTGAACCGAGAGTACGGATATCAATAACATCTTGACCCAGCGTGCCTTTCAGCACATCCAGTTCAACAGCTGTATCCCCGTTGAgggtgggt                                                                                                                                    <  1:470075/143‑1 (MQ=255)

 cgcggaggaggCGGGCGAAGGGAAGCCTGGGTCAAAGGTGAGCACACCTTTTGAACCGAGAGTACGGATATCAATAACATCTTGACCCAGCGTGCCTTTCAGCACATCCAGTTCAACAGCTGTATCCCCGTTGAGGGTGGGtt                                                                                                                                   <  1:27693/138‑1 (MQ=255)

                     tgaagCCTGGGTCAAAGGTGAACACACCTTTTGAACCGAGAGTACGGATATCAATAACATCTTGACCCAGCGAGCCTTTCAGCACATCCAGTTCAACAGCTGTATCCCCGTTGAGGGTGGGGTTTGCTTTTGTATCAGCCAtt                                                                                                               >  1:14632/1‑143 (MQ=255)

                         gCCTGGGTCAAAGGTGAACCCACCTTTTGAACCGAGAGTACGGATATCAATAACATCTTGACCCAGCGTGCCTTTCAGCACATCCAGTTCAACAGCTGTATCCCCGTTGAGGGTGGGTTTTGCTTTTGTATCAGCCATTTAAg                                                                                                           <  1:597279/143‑1 (MQ=255)

                         gCCTGGGTCAAAGGTGAACACACCTTTTGAACCGAGAGTACGGATATCAATAACATCTTGACCCAGCGTGCCTTTCAGCACATCCAGTTCAACAGCTGTATCCCCGTTGAGGGTGGGTTTTGCTTTTGTATCAGCCATTTAAg                                                                                                           <  2:805877/143‑1 (MQ=255)

                         gCCTGGGTCAAAGGTGAACACACCTTTTGAACCGAGAGTACGGATATCAATAACATCTTGACCCAGCGTGCCTTTCAGCACATCCAGTCCACCAGCTGTATCCCCGTTGAGTGTGGGTTTTGCTTTTGTATCAGCCATTTAAg                                                                                                           <  1:341689/143‑1 (MQ=255)

                          ccTGGGTCAAAGGTGAACACACCTTTTGAACCGAGAGTACGGATATCAATAACATCTTGACCCAGCGTGCCTTTCAGCACATCCAGTTCAACAGCTGTATCCCCGTTGAGGGTGGGTTTTGCTTTTGTATCAGCCATTTAggg                                                                                                          >  1:634117/1‑143 (MQ=255)

                                      gTGAACACACCTTTTGAACCGAGAGTACGGATATCAATAACATCTTGACCCAGCGTGCCTTTCAGCACATCCAGTTCAACAGCTGTATCCCCGTTGANGGTGCGTTTTGCTTTTGTATCAGCAATTTAAGGTCTCCTTAgcgc                                                                                              >  2:718017/1‑143 (MQ=255)

                                             gacCTGTGGAACCGGGGGGACGGATATCAATAACACCTTGGCCGAGCGTGCCTTTCAGCACATCCAGTTCAACAGCTGTATCCCCGTTGAGGGTGGGTTTTGCTTTTGGATCAGCCATTTAAGGTCTCCTTAGCGCCTTATTg                                                                                       <  2:239530/142‑1 (MQ=255)

                                               ccTTTTGAACCGAGAGTACGGATATCAATAACATCTTGACCCAGCGTGCCTTTCAGCACATCCAGTTCAACAGCTGTATCCCCGTTGAGGGTGGGTTTTGCTTTTGTATCAGCCATTTAAGGTCTCCTTAGCGCCTTATTGCg                                                                                     <  1:142912/143‑1 (MQ=255)

                                                      aaCCGAGAGTACGGATATCAATAACATCTTGACCCAGCGTGCCTTTCAGCACATCCAGTTCAACAGCTGTATCCCCGTTGAGGGTGGGTTTTGCTTTTGTATCAGCCATTTACGGTCTCCTTCGCGCCTTATTGCGTAAGACt                                                                              >  1:108533/1‑143 (MQ=255)

                                                         cGAGAGTACGGATATCAATAACATCTTGACCCAGCGTGCCTTTCAGCACATCCAGTTCAACAGCTGTATCCCCGTTGAGGGTGGGTTTTGCTTTTGTATCAGCCATTTACGGTCTCCTCAGAGACTACTTGCGTACGACTGcc                                                                           >  2:315394/1‑143 (MQ=255)

                                                               tACGGATATCAATAACATCTTGACCCAGCGTGCCTTTCAGCACATCCAGTTCAACAGCTGTATCCCCGTTGAGGGTGGGTTTTGCTTTTGTATCAGCCATTTCAGGCCTCCTTAGCGCCTTATTGCGTAAGACTGccccgacc                                                                     >  2:346081/1‑137 (MQ=255)

                                                               tACGGATATCAATAACATCTTGACCCAGCGTGCCTTTCAGCACATCCAGTTCAACAGCTGTATCCCCGTTGAGGGTGGGAACAGCTTTTGTATCATCCATTTAAGGTCTCCTTAGCGCCTTATTGCGCAATGCTGCCGGAACt                                                                     >  2:394900/1‑143 (MQ=255)

                                                                aCGGATATCAATACCATCTTGCCCCAGCGTGCCTTTCAGCACATCCAGTTCAACAGCTGTATCCCCGTTGAGGGTGGGTTTTGCTTTTGTATCAGCCATTTAAGGTCTCCTTAGCGCCTTATTGCGTAAGACTGCCGGAACtt                                                                    <  2:22496/143‑1 (MQ=255)

                                                                  ggATATCAATAACATCTTGACCCAGCGTGCCTTTCAGCACATCCAGTTCAACAGCTGTATCCCCGTTGAGGGTGGGTTTTGCTTTTGTATCAGCCATTTAAGGTCTCCTTAGCGCCTTATTGCGTAAGACTGCCGGAACttcc                                                                  >  1:160074/1‑141 (MQ=255)

                                                                   gATATCAATAACACCTTGACCTAGCGTGCCTTTCAGCACATCCAGTTCAACAGCTGTATCCCCGTTGAGGGTGGGTTTTGCTTTTGTATCAGCCATTTAAGGTCTCCTTAGCGCCTTATTGCGTAAGACTGCCGGAACTTaaa                                                                 <  1:107996/143‑1 (MQ=255)

                                                                      atCAATACCATCTTGACCCAGCGTGCCTTTCAGCACATCCAGTTCAACAGCTGTATCCCCGTTGAGGGTGGGTTTTGCTTTTGTATCAGCCATTTAAGGTCTCCTTAGCGCCTTATTGCGTAAGACTGCCGGAACTTAAAttt                                                              <  1:1358/143‑1 (MQ=255)

                                                                         actAACAGCTGGACCCCGCGTGCCTTTCTGCACATCCAGTTCCACAGCTGTATCCCCGCTGAGGGTGGGTTTTGCTTATGCATCAGCCATTTAAGGTCTCGTTAGCGCGTTAGTGGGTAAGACTGCCGGAACTTAAATTTGcc                                                           <  2:97206/141‑1 (MQ=255)

                                                                         aaTAACATCTTGACCCAGCGTGCCTTTCAGCACATCCAGTTCAACAGCTGTATCCCCGTTGAGGGTGGGTTTTGCTTTTGTATCAGCCATTTAAGGTCTCCTTAGCGCCTTATTGCGTAAGACTGCCGGAACTTAAATTTGcc                                                           >  1:562338/1‑143 (MQ=255)

                                                                         aaTAACATCTTGACCCAGCGTGCCTTTCAGCACATCCAGTTCAACAGCTGTATCCCCGTTGAGGGTGGGTTTTGCTTTTGTATCAGCCATTTAAGGTCTCCTTAGCGCCTTATTGCGTAAGACTGCCGGAACTTAAATTTGcc                                                           >  1:529409/1‑143 (MQ=255)

                                                                                   tGAACCAGCGTGCCTTTCAGCACATGCAGTTCTAGAGCTGTATCTCCGTTGAGGGTGTGTTTTGCTTTTGGATCAGCCATGGAAGGTCGCCGTAGCGCCTTATGGCGTAAGACTGCCGGAACTTAAATTTGCCTTCGCACATc                                                 <  1:285350/143‑1 (MQ=255)

                                                                                      cccAGCGTGCCTTTCAGCAGATCCAGTTCACAAGCTGTATTCCCGTTGAGGGTGGGTTTTGCTTTTGTATCAGCCATTTAAGGTCTCCTTAGCGCCTTATTGCGTAAGACTGCCGGAACTTAAATTTGCCTTCGCACATCAAc                                              <  2:432485/143‑1 (MQ=255)

                                                                                        cAGCGTGCCTTTCAGCACATCCAGTTCAACAGCTGTATCCCCGTTGAGGGTGGGTTTTTCTTTTGTATCAGCCATTTAAGGTCTCCTTAGCGCCTTATTGCGTAAGACTGCCGGAACTTAAATTTGCCTTCGCACATCAACCt                                            <  1:213139/143‑1 (MQ=255)

                                                                                         aGCGTGCCTTTCAGCACATCCAGTTCAACAGCTGTATCCCCGTTGAGGGTGGGTTTTGCTTTTGTATCAGCCATTTAAGGTCTCCTTAGCGCCTTATTGCGTAAGACTGCCGGAACTTAAATTTGCCTTCGCACATCAACCTg                                           <  1:348139/143‑1 (MQ=255)

                                                                                           cGTGCCTTTCAGCACATCCAGTTCAACAGCTGTATCCCCGTTGAGGGTGGGTTTTGCTTTTGTATCAGCCATTTAAGGTCTCCTTAGCGCCTTATTGCGTAAGACTGCCGGAACTTAAATTTGCCTTCGCACATCAACCTGGc                                         <  1:222193/143‑1 (MQ=255)

                                                                                            gTGCCTTTCAGCACATCCAGTTCAACAGCTGTATCCCCGTTGAGGGTGGGTTTTGCTTTTGTATCAGCCATTTAAGGTCTCCTTAGCGCCTTATTGCGTAAGACTGCCGGAACTTAAATTTGCCTTCGCACATCAACCTGGCt                                        <  1:135953/143‑1 (MQ=255)

                                                                                                 tttCAGCACATCCAGTTCAACAGCTGTATCCCCGTTGAGGGTGGGTTTTGCTTTTGTATCAGCCATTTAAGGTCTCCTTAGCGCCTTATTGAGTAAGACTGCCGGGACTTCAATTTGCCTTCGCACATCAACCTGGCTTTAcc                                   >  2:696226/1‑143 (MQ=255)

                                                                                                          aTCCAGTTCAACAGCTGTATCCCCGTTGAGGGTGGGTTGTGCTTTTATATCAGCCAGGTAAGGTCTCCTTAGCGCCTTATTGCGTAAGAGTGCCGGAAATTAAATTTGCCTTCGCACATCAACCTGGCTTTACCCGttcgtga                          >  2:412252/1‑138 (MQ=255)

                                                                                                           tCCAGTTCAACAGCTGTATCCCCGTTGAGGGTGGGTTTTGCTTTTGTATCAGCCATTTAAGGTCTCCTTAGCGCCTTATTGCGTAAGACTGCCGGAACTTAAATTTGCCTTCGCCCATCAACCTGGCTTTACCCGtcttttct                         >  1:521520/1‑141 (MQ=255)

                                                                                                             cAGTTCAACAGCTGTATCCCCGTTGAGGGTGGGTTTTGCTTTTGTATCAGCCATTTAAGGTCTCCTTAGCGCCTTATTGCGTAAGACTGCCGGAACTTAAATTTGCCTTCGCACATCAACCTGGCTTTTCCCGTTTTTTAttt                       <  1:117079/143‑1 (MQ=255)

                                                                                                              aGTTCAACAGCTGTATCCCCGTTGAGGGTGGGTTTTGCTTTTGTATCAGCCATTTACGGTCTCCTTAGCGCCTTATTGCGTAAGACTGCCGGAACTTAAATTTGCCTTCGCACATCAACCTGGCTTTACCCGTTTTTTATTTg                      >  1:526931/1‑143 (MQ=255)

                                                                                                               gTTCAACAGCTGTATCCCCGTTGAGGGTGGGTTTTGCTTTTGTATCAGCCATTTAAGGTCTCCTTAGCGCCTTATTGCGTAAGACTGCCGGAACTTAAATTTGCCTTCGCACATCAGCCTGGCTTTACCCGTTTTTTATTTgg                     >  2:734255/1‑143 (MQ=255)

                                                                                                               gTTCAACAGCTGTATCCCCGTTGAGGGTGGGTTTTGCTTTTGTATCAGCCATTTAAGGTCTCCTTAGCGCCTTATTGCGTAAGACTGCCGGAACTTAAATTTGCCTTCGCACATCAACCTGGCTTTACCCGTTTTTTATTTgg                     <  2:179045/143‑1 (MQ=255)

                                                                                                                 tCAACAGCTGTATCCCCGTTGAGGGTGGGTTTTGCTTTTGTATCAGCCATTTAAGGTCTCCTTAGCGCCTTATTGCGTAAGACTGCCGGAACTTAAATTTGCCTTCGCACATCAACCTGGCTTTACCCGTTTTTTATTTGGCt                   >  1:382286/1‑143 (MQ=255)

                                                                                                                    aCAGCTGTATCCCCGTTGAGGGTGGGTTTTGCTTTTGTATCAGCCATTTAAGGTCTCCTTAGCGCCTTATTGCGTAAGACTGCCGGAACTTAAATTTGCCTTCGCACATCAACCTGGCTTTACCCGTTTTTTCTTTGGCTcgc                >  2:11324/1‑143 (MQ=255)

                                                                                                                    aCAGCTGTATCCCCGTTGAGGGTGGGTTTTGCTTTTGTATCAGCCATTTAAGGTCTCCTTAGCGCCTTATTGCGTAAGACTGCCGGAACTTAAATTTGCCTTCGCACATCAACCTGCCTTTCCCCGTTTTTTATTTGTCTcgt                >  2:569712/1‑142 (MQ=255)

                                                                                                                        cTGTATCCCCGTTGAGGGTGGGTTTTGCTTTTGTATCAGCCATTTAAGGTCTCCTTAGCGCCTTATTGCGTAAGACTGCCGGAACTTAAATTTGCCTTCGCACATCAACCTGGCTTTACCCGTTTTTTATTTGGCTCGCCGct            >  1:634299/1‑143 (MQ=255)

                                                                                                                          gTATCCCCGTTGAGGGTGGGTTTTGCTTTTGTATCAGCCATTTAAGGTCTCCTTAGCGCCTTATTGCGTAAGACTGCCGGAACTTAAATTTGCCTTCGCACATCAACCTGGCTTTACCCGTTTTTTATTTGGCTCGCCGctct          <  2:529409/143‑1 (MQ=255)

                                                                                                                                ccGTTGAGGGTTGGTTTTGCTTTTGTATCAGCCATTTAAGGTCTCCTTAGCGCCTTATTGCGTAAGACTGCCGGAACTTAAATTTGCCTTCGCACATCAACCTGGCTTTACCCGTTTTTTATTTGGCTCGCCGCTCTGTGaaa    <  2:497453/143‑1 (MQ=255)

                                                                                                                                  gTTGAGGGTGGGTTTTGCTTTTGTATCAGCCATTTAAGGTCTCCTTAGCGCCTTATTGCGTAAGACTGCCGGAACTTAAATTTGCCTTCGCACATCAACCTGGCTTTACCCGTTTTTTATTTGGCTCGCCGCTCTGTGAAaga  <  1:435978/143‑1 (MQ=255)

ATTCGCAGGATGCGGTTGAAGTGAAGCCTGGGTCAAAGGTGAACACACCTTTTGAACCGAGAGTACGGATATCAATAACATCTTGACCCAGCGTGCCTTTCAGCACATCCAGTTCAACAGCTGTATCCCCGTTGAGGGTGAGTTTTGCTTTTGTATCAGCCATTTAAGGTCTCCTTAGCGCCTTATTGCGTAAGACTGCCGGAACTTAAATTTGCCTTCGCACATCAACCTGGCTTTACCCGTTTTTTATTTGGCTCGCCGCTCTGTGAAAGA  >  NC_000913/754306‑754578

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 13 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A